genome.fa.s4.2.7.7.80.10.50.1000.43.html

Tandem Repeats Finder Program written by:

Gary Benson
Program in Bioinformatics
Boston University
Version 4.09

Please cite:
G. Benson,
"Tandem repeats finder: a program to analyze DNA sequences"
Nucleic Acid Research(1999)
Vol. 27, No. 2, pp. 573-580.

Sequence: Chr04 98600468 
Parameters: 2 7 7 80 10 50 1000
Length:  98600468

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20   21   22   23   24   25   26   27   28   29   30   31   32   
          33   34   35   36   37   38   39   40   41   42   43   44   45   46   47   48   
          49   50   51   52   53   54   55   56   57   58   59   60   61   62   63   64   
          65   66   67   68   69   70   71   72   73   74   75   76   77   78   79   80   
          81   82   83   84   85   86   87   88   89   90   91   92   93   94   95   96   
          97   98   99   100   101   102   103   104   105   106   107   108   109   110   111   112   
          113   114   115   116   117   118   119   120   121   122   123   124   125   126   127   128   
          129   130   131   132   133   134   135   136   137   138   139   140   141   142   143   144   
          145   146   147   148   149   150   151   152   153   154   155   156   157   158   159   160   
          161   162   163   164   165   166   167   168   169   170   171   172   173   174   175   176   
          177   178   179   180   181   182   183   184   185   186   187   188   189   190   191   192   
          193   194   195   196   197   198   199   200   201   202   203   204   205   206   207   208   
          209   210   211   212   213   214   215   216   217   218   219   220   221   222   223   224   
          225   226   227   228   229   230   231   232   233   234   235   236   237   238   239   240   
          241   242   243   244   245   246   247   248   249   250   251   252   253   254   255   256   
          257   258   259   260   261   262   263   264   265   266   267   268   269   270   271   272   
          273   274   275   276   277   278   279   280   281   282   283   284   285   286   287   288   
          289   290   291   292   293   294   295   296   297   298   299   300   301   302   303   304   
          305   306   307   308   309   310   311   312   313   314   315   316   317   318   319   320   
          321   322   323   324   325   

This is table  43  of  325  ( 38914 repeats found )

Click on indices to view alignment

Table Explanation

Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
10598511--10598568	22	2.7	22	78	2	64	46	13	3	36	1.61
10599466--10599497	2	16.0	2	100	0	64	50	0	0	50	1.00
10599489--10599580	47	2.0	47	93	0	157	39	15	16	29	1.89
10608509--10608575	31	2.2	30	86	2	89	43	10	11	34	1.76
10617838--10618346	250	2.0	250	98	0	982	32	23	14	28	1.95
10618955--10618999	23	2.0	23	100	0	90	24	22	17	35	1.95
10622148--10622213	28	2.4	28	87	5	98	37	1	3	57	1.23
10624856--10624895	21	1.9	21	84	0	53	27	7	2	62	1.35
10624863--10624910	21	2.3	21	85	3	62	29	4	0	66	1.10
10626081--10626120	11	3.8	11	87	12	57	77	2	0	20	0.88
10626081--10626120	5	7.8	5	84	15	55	77	2	0	20	0.88
10626736--10626791	26	2.1	28	83	6	71	66	0	3	30	1.09
10627235--10627282	17	2.6	18	83	9	53	35	6	0	58	1.23
10632866--10632897	2	16.0	2	100	0	64	50	0	0	50	1.00
10633625--10633672	18	2.6	19	80	9	64	62	4	0	33	1.14
10634608--10634747	72	1.9	72	80	5	158	37	16	18	27	1.92
10634724--10634784	27	2.3	27	88	0	86	36	16	24	22	1.94
10634736--10634791	27	2.1	27	86	0	76	30	17	30	21	1.96
10636778--10636824	12	3.9	12	80	0	58	55	2	23	19	1.54
10636776--10636825	24	2.1	24	92	0	82	56	2	24	18	1.52
10636973--10637045	26	2.8	26	79	4	85	43	12	16	27	1.83
10639361--10639419	28	2.1	27	96	3	109	42	10	15	32	1.80
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
10642781--10642991	64	3.2	64	61	20	142	29	25	18	27	1.98
10642747--10643033	137	2.1	137	96	0	529	31	24	18	25	1.98
10644821--10644956	26	5.2	26	94	0	236	36	25	5	33	1.78
10649752--10649821	30	2.4	30	82	2	88	25	15	20	38	1.92
10649943--10649980	19	2.0	19	100	0	76	42	15	5	36	1.70
10652502--10652546	3	15.3	3	95	4	83	31	0	0	68	0.89
10653295--10653401	45	2.4	45	80	3	126	42	18	16	21	1.89
10657737--10657836	35	2.9	35	81	3	112	30	8	18	44	1.78
10664995--10665132	35	4.0	35	80	11	142	29	9	18	42	1.82
10665007--10665160	70	2.2	70	83	6	188	29	8	17	44	1.78
10671620--10671676	8	7.4	8	75	18	50	47	1	3	47	1.29
10671692--10671761	12	6.2	11	73	17	63	75	2	18	2	1.05
10673036--10673109	36	2.1	36	100	0	148	47	2	18	31	1.63
10676986--10677033	24	2.0	24	88	8	71	43	8	27	20	1.80
10685372--10685461	45	2.0	45	82	0	108	6	12	18	62	1.51
10687439--10687526	44	2.0	44	100	0	176	34	15	15	34	1.90
10690170--10690209	19	2.0	20	85	4	55	42	7	5	45	1.54
10690928--10691156	114	2.0	114	97	0	431	42	13	13	30	1.83
10698056--10698163	26	4.2	26	98	0	198	30	5	26	37	1.79
10699649--10699701	26	2.0	26	85	7	72	39	22	11	26	1.88
10703781--10703814	3	11.3	3	100	0	68	0	0	64	35	0.94
10708795--10708911	53	2.2	53	95	1	209	30	5	11	51	1.63
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
10709071--10709101	13	2.4	13	100	0	62	32	0	6	61	1.21
10712816--10712847	16	2.0	16	93	0	55	28	37	15	18	1.92
10713001--10713059	18	3.3	18	83	2	75	35	22	8	33	1.84
10713039--10713258	58	3.8	58	84	3	266	34	17	11	36	1.86
10713240--10713414	24	7.4	24	72	9	101	32	17	14	36	1.90
10713240--10713411	47	3.7	47	77	9	147	31	18	13	36	1.90
10713274--10713417	47	3.0	48	81	8	159	31	17	15	36	1.91
10713413--10713552	41	3.4	41	91	4	201	32	22	16	29	1.95
10713526--10713572	15	3.3	14	80	11	51	34	17	21	27	1.95
10715225--10718092	3	959.3	3	90	9	4547	30	0	2	66	1.05
10720612--10720759	50	3.0	49	90	4	224	35	25	18	20	1.95
10720643--10720723	25	3.2	25	67	0	81	37	28	16	18	1.92
10723306--10723352	8	5.9	8	100	0	94	0	10	0	89	0.49
10723306--10723355	1	50.0	1	79	0	55	0	10	0	90	0.47
10726631--10726820	102	1.9	102	84	4	258	22	22	22	32	1.98
10729374--10729545	93	1.8	93	96	0	317	27	30	21	19	1.98
10729367--10729542	46	3.8	46	77	12	198	28	30	21	19	1.97
10735436--10735495	22	2.7	22	80	10	61	71	3	3	21	1.15
10738002--10738175	91	1.9	93	81	2	217	33	14	10	40	1.81
10740970--10741038	34	2.0	34	97	0	129	30	20	18	30	1.97
10743482--10743538	24	2.4	24	87	0	78	47	10	5	36	1.61
10743494--10743545	24	2.2	24	89	0	77	51	5	3	38	1.44
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
10744084--10744175	45	2.0	45	95	0	166	36	9	16	36	1.82
10763030--10763066	19	2.0	19	89	5	58	54	8	0	37	1.30
10763193--10763245	3	17.7	3	100	0	106	32	0	0	67	0.91
10763612--10763917	156	2.0	156	94	1	533	41	6	16	35	1.74
10763984--10764026	21	2.1	21	87	8	63	62	9	0	27	1.25
10763984--10764045	20	3.2	19	77	8	63	61	6	0	32	1.21
10764060--10764093	17	1.9	18	88	5	52	52	0	0	47	1.00
10775287--10775393	3	35.3	3	77	9	92	60	1	4	32	1.28
10777392--10777556	82	2.0	82	96	0	303	30	13	18	37	1.90
10779970--10780005	19	1.9	19	94	5	65	27	19	13	38	1.90
10781027--10781079	21	2.5	21	90	0	79	30	35	9	24	1.87
10781400--10781466	2	33.5	2	96	0	125	50	1	0	47	1.10
10781783--10781833	21	2.3	23	70	12	54	11	7	37	43	1.71
10787757--10787787	14	2.2	14	94	0	53	19	3	0	77	0.90
10792209--10792239	14	2.2	14	94	0	53	19	3	0	77	0.90
10793897--10793940	19	2.3	18	85	11	61	29	11	11	47	1.74
10793908--10793945	19	2.0	19	100	0	76	26	10	15	47	1.78
10794043--10794068	2	13.0	2	100	0	52	50	0	0	50	1.00
10795640--10795664	12	2.1	12	100	0	50	76	8	8	8	1.18
10797348--10797411	32	2.0	32	93	0	110	40	17	4	37	1.70
10803606--10803793	93	2.0	93	100	0	376	27	12	23	36	1.91
10804041--10804074	11	3.1	11	91	0	50	64	8	8	17	1.47
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
10806408--10806487	41	1.9	43	89	5	128	26	8	2	62	1.37
10806589--10806615	9	3.0	9	100	0	54	22	0	0	77	0.76
10809454--10809540	10	8.7	10	74	20	58	29	1	1	67	1.05
10809480--10809540	5	12.0	5	81	14	72	36	0	1	62	1.05
10809472--10809538	22	3.0	22	89	4	100	34	0	1	64	1.03
10810744--10810927	99	1.9	99	85	0	260	24	12	28	34	1.92
10812537--10812563	9	3.0	9	100	0	54	22	0	0	77	0.76
10819324--10819362	18	2.2	18	90	0	60	41	30	15	12	1.85
10821129--10821271	48	3.0	48	83	6	175	48	3	2	45	1.31
10821166--10821233	15	4.4	15	70	14	57	47	1	1	50	1.19
10824243--10824412	43	4.0	41	75	11	119	33	25	15	24	1.95
10826417--10826463	21	2.2	20	82	10	58	55	2	0	42	1.12
10843082--10843126	23	2.0	23	82	8	56	37	8	13	40	1.76
10851418--10851563	35	4.0	35	85	8	177	33	23	12	30	1.92
10851393--10851563	35	4.7	36	81	12	163	33	22	11	32	1.89
10857592--10857819	46	5.0	46	91	1	323	22	24	14	38	1.91
10859746--10859787	21	2.0	21	90	0	66	0	23	0	76	0.79
10860863--10860960	42	2.3	42	83	0	124	20	25	30	23	1.98
10867023--10867075	22	2.4	22	96	0	97	41	16	15	26	1.88
10868753--10868948	69	2.8	69	84	6	223	29	22	14	32	1.94
10868752--10868948	33	5.6	35	71	11	127	29	23	14	32	1.94
10868788--10868948	69	2.3	69	87	2	225	27	22	16	32	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
10871890--10871944	23	2.3	23	96	3	101	30	10	3	54	1.52
10879210--10879248	20	2.0	19	85	14	53	41	0	28	30	1.57
10888639--10888843	96	2.1	98	84	7	276	38	1	18	41	1.59
10888932--10889455	126	4.2	126	91	1	843	33	18	21	26	1.96
10892480--10893327	116	7.3	116	95	0	1480	46	9	4	39	1.56
10893713--10893755	18	2.4	18	92	0	68	44	11	27	16	1.82
10894263--10894306	22	2.0	22	100	0	88	27	9	22	40	1.84
10894394--10894420	7	3.9	7	100	0	54	59	14	0	25	1.36
10894386--10894419	14	2.4	14	90	0	50	64	8	0	26	1.22
10895523--10895553	15	2.1	15	93	0	53	70	0	6	22	1.09

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20   21   22   23   24   25   26   27   28   29   30   31   32   
          33   34   35   36   37   38   39   40   41   42   43   44   45   46   47   48   
          49   50   51   52   53   54   55   56   57   58   59   60   61   62   63   64   
          65   66   67   68   69   70   71   72   73   74   75   76   77   78   79   80   
          81   82   83   84   85   86   87   88   89   90   91   92   93   94   95   96   
          97   98   99   100   101   102   103   104   105   106   107   108   109   110   111   112   
          113   114   115   116   117   118   119   120   121   122   123   124   125   126   127   128   
          129   130   131   132   133   134   135   136   137   138   139   140   141   142   143   144   
          145   146   147   148   149   150   151   152   153   154   155   156   157   158   159   160   
          161   162   163   164   165   166   167   168   169   170   171   172   173   174   175   176   
          177   178   179   180   181   182   183   184   185   186   187   188   189   190   191   192   
          193   194   195   196   197   198   199   200   201   202   203   204   205   206   207   208   
          209   210   211   212   213   214   215   216   217   218   219   220   221   222   223   224   
          225   226   227   228   229   230   231   232   233   234   235   236   237   238   239   240   
          241   242   243   244   245   246   247   248   249   250   251   252   253   254   255   256   
          257   258   259   260   261   262   263   264   265   266   267   268   269   270   271   272   
          273   274   275   276   277   278   279   280   281   282   283   284   285   286   287   288   
          289   290   291   292   293   294   295   296   297   298   299   300   301   302   303   304   
          305   306   307   308   309   310   311   312   313   314   315   316   317   318   319   320   
          321   322   323   324   325